Sequence
atgc intronic sequence ATGC exonic sequencegtataacaaaatcaaatgatgacatattgatatttttcttaaaatatgtaacaaaattttattaaaatatgcacgtgtgattagttgaataatgtttcaagtgacatatatataatggcagAGTTCTGGGTACACGGTGGCAATGGTGGGAGATGGAATAAACGATTCACCAGCACTAGTGGCTGCTGATGTAGGAATGGCAATTGGTGCTGGCACAGACA
Basic information
species | Glycine max |
transcript | GLYMA01G42800.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G42800.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g03640.t01 (Vitis vinifera), 3'ss of exon 4
gtataacaaaatcaaatgatgacatattgatatttttcttaaaatatgtaacaaaattttattaaaatatgcacgtgtgattagttgaataatgtttcaagtgacatatatataatggcagAGTTCTGGGTACACGGTGGCAATGGTGGGAGATGGAATAAACGATTCACCAGCACTAGTGGCTGCTGATGTAGGAATGGCAATTGGTGCTGGCACAGACA
||| | || || || | | | | ||| | | | || | | | | | || || | | || | |||| ||| || ||| || |||||||| ||||| || || || ||||||||||| || | ||||| ||||| || |||||||||||||| ||||||||||
-----------------------------gtatgaatgcgggcatcagtttcaggacat--ctgacttatatatg-attatgatctcactgctattatccatggc-ttcattccactgcagGCTTCAGGCAACATCGTCGCAATGGTTGGAGACGGCATTAATGATTCACCAGCTCTTGCAGCTGCAGATGTTGGTATGGCAATTGGTGCAGGCACAGACA
upper sequence: GLYMA01G42800.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 11
gtataacaaaatcaaatgatgacatattgatatttttcttaaaatatgtaacaaaattttattaaaatatgcacgtgtgattagttgaataatgtttcaagtgacatatatataatg-gcagAGTTCTGGGTACACGGTGGCAATGGTGGGAGATGGAATAAACGATTCACCAGCACTAGTGGCTGCTGATGTAGGAATGGCAATTGGTGCTGGCACAGACA
||| | | ||||| | ||| | | | || || | ||||||| | |||| | | | | | | || | ||| || || || || ||||||||||| |||||||| || ||||| |||||||| || || ||||| ||||| |||||||| |||||||| ||||||||||
-----------------------------gtataaat-tgaaaattagctccaagacatgaata--atgactattcgtgattattcc--caatgctgtaga-atcttgtctttattccacagGCGTCGGGCTATACCGTGGCAATGGTTGGAGATGGCATCAACGACTCACCAGCTCTTGTCGCTGCAGATGTTGGAATGGCGATTGGTGCAGGCACAGACA
upper sequence: GLYMA01G42800.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g03630.t01 (Vitis vinifera), 3'ss of exon 5
gtataacaaaatcaaatgatgacatattgatatttttcttaaaatatgtaacaaaattttattaaaatatgcacgtgtgattagttgaataatgtttcaagtgacatatatataatg-gcagAGTTCTGGGTACACGGTGGCAATGGTGGGAGATGGAATAAACGATTCACCAGCACTAGTGGCTGCTGATGTAGGAATGGCAATTGGTGCTGGCACAGACA
|| | |||| | ||||| | || | ||||| |||| | | ||| | | || | ||| | | | ||| ||| || | || ||||||||||| |||||||| || |||||||| ||||| || || ||||| |||| ||||||||||||||||| ||||||||||
--------------------------------------gtatga-atgtga-aaaatagttccaagacatgcata-atgatcattct--caatctgttaaatatcatgtcctcattccacagGCTTCGGGCCATACCGTGGCAATGGTTGGAGATGGCATCAACGATTCTCCAGCCCTTGTAGCTGCAAATGTTGGAATGGCAATTGGTGCAGGCACAGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgcacgtgtgattagttgaataatgtttcaagtgacatatatataatggcagAGTTCTGGGTACACGGTGGCAATGGTGGGAGATGGAATAAACGATTCACCAGCACTAGTGGCTGCTGATGTAGGAATGGCAATTGGTGCTGGCACAGACA
tgacatatatataat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataacaaaatcaaatgatgacatattgatatttttcttaaaatatgtaacaaaattttattaaaatatgcacgtgtgattagttgaataatgtttcaagtgacatatatataatggcagAGTTCTGGGTACACGGTGGCAATGGTGGGAGATGGAATAAACGATTCACCAGCACTAGTGGCTGCTGATGTAGGAATGGCAATTGGTGCTGGCACAGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT